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Author:

Zhang, Honggucun (Zhang, Honggucun.) | Li, Chunhua (Li, Chunhua.) (Scholars:李春华) | Yang, Feng (Yang, Feng.) | Su, Jiguo (Su, Jiguo.) | Tan, Jianjun (Tan, Jianjun.) | Zhang, Xiaoyi (Zhang, Xiaoyi.) | Wang, Cunxin (Wang, Cunxin.)

Indexed by:

Scopus SCIE PubMed

Abstract:

Cation-pi interactions have proved to be important in proteins and protein-ligand complexes. Here, cation-pi interactions are analyzed for 282 non-redundant protein-RNA interfaces. The statistical results show that this kind of interactions exists in 65% of the interfaces. The four RNA bases are ranked as Gua > Ade > Ura > Cyt according to their propensity to participate in cation-pi interactions. The corresponding ranking for the involved amino acid residues is: Arg > Lys > Asn > Gln. The same trends are obtained based on the empirical energy calculation. The Arg-Gua pairs have the greatest stability and are also most frequently observed. The number of cation-pi pairs involving unpaired bases is 2.5 times as many as those involving paired bases. Hence, cation-pi interactions show sequence and structural specificities. For the bicyclic bases, Gua and Ade, their 5-atom rings participate in cation-pi interactions somewhat more than the 6-atom rings, with percentages of 54 and 46%, respectively, which is due to the higher cation-pi participation proportion (63%) of 5-atom rings in the paired bases. These results give a general view of cation-pi interactions at protein-RNA interfaces and are helpful in understanding the specific recognition between protein and RNA.

Keyword:

ab initio protein-RNA interfaces electrostatic energy cation-pi interactions sequence and structural specificities

Author Community:

  • [ 1 ] [Zhang, Honggucun]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 2 ] [Li, Chunhua]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 3 ] [Yang, Feng]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 4 ] [Tan, Jianjun]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 5 ] [Zhang, Xiaoyi]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 6 ] [Wang, Cunxin]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China
  • [ 7 ] [Su, Jiguo]Yanshan Univ, Coll Sci, Qinhuangdao 066004, Peoples R China

Reprint Author's Address:

  • 李春华

    [Li, Chunhua]Beijing Univ Technol, Coll Life Sci & Bioengn, Beijing 100124, Peoples R China

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Source :

BIOCHEMISTRY-MOSCOW

ISSN: 0006-2979

Year: 2014

Issue: 7

Volume: 79

Page: 643-652

2 . 8 0 0

JCR@2022

ESI Discipline: BIOLOGY & BIOCHEMISTRY;

ESI HC Threshold:285

JCR Journal Grade:4

CAS Journal Grade:4

Cited Count:

WoS CC Cited Count: 18

SCOPUS Cited Count: 19

ESI Highly Cited Papers on the List: 0 Unfold All

WanFang Cited Count:

Chinese Cited Count:

30 Days PV: 6

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